Identification of DNA methylation changes at cis-regulatory elements during early steps of HSC differentiation using tagmentation-based whole genome bisulfite sequencing

Item Type:	Article
Title:	Identification of DNA methylation changes at cis-regulatory elements during early steps of HSC differentiation using tagmentation-based whole genome bisulfite sequencing
Creators Name:	Lipka, D.B. and Wang, Q. and Cabezas-Wallscheid, N. and Klimmeck, D. and Weichenhan, D. and Herrmann, C. and Lier, A. and Brocks, D. and von Paleske, L. and Renders, S. and Wünsche, P. and Zeisberger, P. and Gu, L. and Haas, S. and Essers, M.A. and Brors, B. and Eils, R. and Trumpp, A. and Milsom, M.D. and Plass, C.
Abstract:	Epigenetic alterations during cellular differentiation are a key molecular mechanism which both instructs and reinforces the process of lineage commitment. Within the haematopoietic system, progressive changes in the DNA methylome of haematopoietic stem cells (HSCs) are essential for the effective production of mature blood cells. Inhibition or loss of function of the cellular DNA methylation machinery has been shown to lead to a severe perturbation in blood production and is also an important driver of malignant transformation. HSCs constitute a very rare cell population in the bone marrow, capable of life-long self-renewal and multi-lineage differentiation. The low abundance of HSCs has been a major technological barrier to the global analysis of the CpG methylation status within both HSCs and their immediate progeny, the multipotent progenitors (MPPs). Within this Extra View article, we review the current understanding of how the DNA methylome regulates normal and malignant hematopoiesis. We also discuss the current methodologies that are available for interrogating the DNA methylation status of HSCs and MPPs and describe a new data set that was generated using tagmentation-based whole genome bisulfite sequencing (TWGBS) in order to comprehensively map methylated cytosines using the limited amount of genomic DNA that can be harvested from rare cell populations. Extended analysis of this data set clearly demonstrates the added value of genome-wide sequencing of methylated cytosines and identifies novel important cis-acting regulatory regions that are dynamically remodeled during the first steps of haematopoietic differentiation.
Keywords:	DNA Methylation, Differentiation, Epigenetics, Haematopoietic Stem Cells, Progenitor Cells
Source:	Cell Cycle
ISSN:	1538-4101
Publisher:	Taylor & Francis
Volume:	13
Number:	22
Page Range:	3476-3487
Date:	10 December 2014
Official Publication:	https://doi.org/10.4161/15384101.2014.973334
External Fulltext:	View full text on PubMed Central
PubMed:	View item in PubMed

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